Query 004476
Match_columns 751
No_of_seqs 222 out of 264
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 00:02:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004476.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004476hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2217 U4/U6.U5 snRNP associa 100.0 1E-62 2.2E-67 548.5 21.9 503 186-740 52-593 (705)
2 PF03343 SART-1: SART-1 family 100.0 5.6E-65 1.2E-69 581.9 0.0 432 228-706 47-504 (613)
3 KOG4676 Splicing factor, argin 94.5 0.015 3.3E-07 64.5 1.4 10 315-324 455-464 (479)
4 KOG2217 U4/U6.U5 snRNP associa 93.9 0.046 1E-06 64.3 3.6 168 557-728 422-596 (705)
5 KOG4676 Splicing factor, argin 89.8 0.19 4.1E-06 56.3 2.2 22 185-206 349-370 (479)
6 KOG4246 Predicted DNA-binding 68.5 1.7 3.6E-05 52.8 0.1 19 687-705 1090-1108(1194)
7 TIGR01642 U2AF_lg U2 snRNP aux 59.3 0.78 1.7E-05 52.1 -4.8 8 698-705 439-446 (509)
8 KOG4246 Predicted DNA-binding 55.2 4.8 0.00011 49.1 0.7 11 4-14 257-267 (1194)
9 KOG1029 Endocytic adaptor prot 50.4 39 0.00085 41.6 7.0 22 138-159 373-394 (1118)
10 KOG1029 Endocytic adaptor prot 36.1 1.3E+02 0.0029 37.3 8.4 9 240-248 491-499 (1118)
11 KOG0670 U4/U6-associated splic 35.1 26 0.00056 41.7 2.4 7 614-620 597-603 (752)
12 KOG0670 U4/U6-associated splic 28.8 14 0.0003 43.9 -1.1 10 332-341 327-336 (752)
13 PF09701 Cas_Cmr5: CRISPR-asso 23.3 43 0.00094 31.8 1.4 20 687-706 39-58 (122)
14 PTZ00266 NIMA-related protein 22.6 2.5E+02 0.0054 36.2 8.0 21 557-577 897-917 (1021)
No 1
>KOG2217 consensus U4/U6.U5 snRNP associated protein [RNA processing and modification]
Probab=100.00 E-value=1e-62 Score=548.54 Aligned_cols=503 Identities=29% Similarity=0.406 Sum_probs=364.2
Q ss_pred hhhhhhhhhhccCCCCccccccCCCcccccccCCCcCCccc------ccCCcccccCchhhhhhHHHHHHHHHhhcC---
Q 004476 186 SRKAHEEDCARSNDNMPKLDNEGNMNRDINKHGKVSYDDID------DQDNEDAHVSTSGLGDRILKMKEERLKKNS--- 256 (751)
Q Consensus 186 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~------~~d~~~~~~~~~eL~erI~~~kekR~~~~k--- 256 (751)
+--..+-+.-+.++|.--++...+.+.+ |--..|... ...|.-.......|++++..++++|.++..
T Consensus 52 slSIeETNklRakLGlkPlev~~~K~~~----~~~e~~~~ae~~e~r~~~nlk~~~~~~~~~ekl~~akekr~~~~~l~k 127 (705)
T KOG2217|consen 52 SLSIEETNKLRAKLGLKPLEVNSEKSTD----GTDEEHSAAETNELRPALNLKEKPEQKDLREKLKQAKEKRLLNEKLEK 127 (705)
T ss_pred ccchhHhHHHHHhcCCCccccccccccc----cccchhhhhhhhhcchhhcccccchhhhHHHHHHHhhHHHHHHHHHHH
Confidence 3344455566666776555554444331 111212211 223444556678999999999999977742
Q ss_pred --------CCCchHHHHHHHhhhHHHHhHHHHHHHHHHhhhHHHhhhhhcCCCch--hhhccCCcCCCCCCeeecccccc
Q 004476 257 --------EGAPEILSWVNRSRKIEQIKNVEKKKALQLSKIFEEQDNIVQGESED--EEAGQHSSHDLAGVKVLHGLDKV 326 (751)
Q Consensus 257 --------ddddD~~sWv~ksrk~e~~kk~Eke~A~krAk~leE~D~~~~v~~~~--~~~~~Yt~~DL~GlkV~H~~~~f 326 (751)
++.+||++||.+||..+. ++..|..+|++|.+++++||.-... ..+..|...||.||+|+|+++.|
T Consensus 128 iktl~e~de~~dd~aswv~k~r~~~~----e~~~a~~rA~~l~~~dee~g~~~~~~~~~~~~~~~sdL~G~kV~Hg~e~f 203 (705)
T KOG2217|consen 128 IKTLAEKDEEPDDAASWVEKMRQNED----EKNLANMRAKALSELDEESGIVTLKRKGNQKEYGNSDLHGVKVSHGIEAF 203 (705)
T ss_pred HHHHhhcccchhhHHHHHHHHhhhhh----hhhhhhhhhhhhhhhhhhhchhhccccccCCCCCCcccccceeecchhhh
Confidence 345899999999999977 6778999999999999999722111 24668999999999999999999
Q ss_pred ccCCcEEEeecCccccccCCCCCCcccccchhhhhhhhHHHHHHHHhccCCCCCCCCCCCCCCCCcCCcccCCcCCC---
Q 004476 327 MEGGAVVLTLKDQQILADGDINEDVDMLENIEIGEQKRRDEAYKAAKKKTGIYDDKFNDDPSSEKKILPQYDEPATD--- 403 (751)
Q Consensus 327 ~eG~~~ILTLKD~~VLdd~d~~ee~D~LeNv~L~e~er~~~~l~~kKKk~~~YDde~~dd~~~~k~IL~KYDEEieg--- 403 (751)
.+|.+|||||||++||+++|++...|+|+||.+++..+.+..+.+. +..+||+.++ ..++++|++||++.+|
T Consensus 204 ~eg~~~ILTLKD~~VLdd~dv~n~~D~lenvk~ve~kkrne~~~~~--~~e~ydD~~n---~k~~s~l~k~dee~E~e~~ 278 (705)
T KOG2217|consen 204 SEGKDVILTLKDQSVLDDGDVVNLVDVLENVKNVELKKRNEKYELY--PDEMYDDLGN---KKPRSELSKYDEELEGEGK 278 (705)
T ss_pred ccCCceEEEeccccccccccchhhHHHHHHHHHHHHhccCchhccc--ccccchhhcc---ccchhhhccCChhhhcccC
Confidence 9999999999999999998765557888888888877766666664 2345666443 3678999999999887
Q ss_pred CCeeeCCCCCcChHHHHHHHHHHHHHhhhhccCccCccC-CCcccCCccccHHhhhhccCccccchhhhhhhccchhhHH
Q 004476 404 EGLTLDARGRFTGEAEKKLEELRRRIQGVQANNSTGDLN-LSAKITSDYFTQEEMLQFKKPKKKKKSIRKKEKLDLDALE 482 (751)
Q Consensus 404 ~~F~L~~~G~~~~~~e~~~ee~r~kL~~~~~~~~lesL~-~~~~~aSDY~t~eEm~kFKKPKKKKKK~RkK~k~d~ddle 482 (751)
++|.|+..|.++++.++++++++.+|++. .+.+|. ..+.++|+|||++||.+|||||| +|++|++. +.+.+|.
T Consensus 279 k~~~l~~~g~id~e~ekkl~e~r~ki~gk----~~~~~e~~n~~las~~~S~eem~kFkk~Kk-~kklrkk~-l~asdl~ 352 (705)
T KOG2217|consen 279 KQFRLTTHGTIDGEREKKLEEIRNKIAGK----TLTGLEDVNYRLASDYYSQEEMGKFKKPKK-KKKLRKKN-LRASDLR 352 (705)
T ss_pred cceeeecccccchhhHHHHHHHHHHhccC----CccchhhcCHHHhhhhcCHHHhhcccchhH-Hhhhhccc-ccccccc
Confidence 68999999999999999999999998865 233443 23689999999999999999999 89999986 7889999
Q ss_pred HHhhhcCCCCCCCCCccccchhhhHHHHHHHHHHHhhHhhHHHHHHHHHHHHhhhhhccCCCCccccCCCCCCCChHHHH
Q 004476 483 AEALSAGLGVEDLGSRKDGRRQAIREEQEKSEAEMKNKAYQSAYAKAEEAIKSLRMEQTRPVKLEEENEEPIADDEDDLY 562 (751)
Q Consensus 483 ~e~~~~~~~~~DlGSR~r~rr~~~~~e~e~~d~~~r~~~~~~a~~kA~e~s~~~r~~~~~~~~~~~~e~~~~~eDDeDLQ 562 (751)
|.+++.+.+++|||||.+|+++......|.+..+.+.. .+ ..|+ +|++||
T Consensus 353 ~~~~~~~~~~~Dlgsr~~gr~~d~e~~~mee~~p~~~~------------------------~~-----q~v~-~dDeL~ 402 (705)
T KOG2217|consen 353 PLAIGDGMEISDLGSRDSGRREDEELSKMEEEKPQRIN------------------------EV-----QEVA-EDDELQ 402 (705)
T ss_pred hhhcccccccccccccccchhhhhhHhhhhccccccch------------------------hh-----hhcc-chhhhh
Confidence 99999999999999988888777665555543321100 00 1244 455999
Q ss_pred HHHHHHHHHHHHHhhhcCCHHHHHHHHHh-hccccccCc---ccccccCceEeechHHHhhcCCCCc----ccccc-ccc
Q 004476 563 KSLERARKLALKKQEASSGPEAIARLATS-QTANEQSTT---NEESEEKKVVITELQEFVWGLPVGE----EVQKQ-DRQ 633 (751)
Q Consensus 563 asLaraRRla~KK~~~~~~Pe~IA~~~~~-~~~~~~~~~---~~~~~~gglVfdeTSEFvrtL~~~~----~~~R~-e~e 633 (751)
..|+++|+++|+..+. -+.+.+.++.. +....+... .-+...+.|||+.|+|||++||.|+ ++++- +..
T Consensus 403 ~~lak~Rkl~q~~~~~--~~d~~e~~~~~~e~~~~~~~~e~e~~~~~~~~i~~~~tte~~rtlg~i~t~g~egnrn~d~~ 480 (705)
T KOG2217|consen 403 RPLAKARKLKQKRDKQ--LKDDGEKVLKSLEKSRSMVVDEKESFDDTRGAIVLDATTEFCRTLGDITTYGLEGNRNVDIN 480 (705)
T ss_pred hHHHHHHHHHHHhhhh--ccccHHHHHHHHHHhhhcccccccCccCccceeeehhhhHHHHhccCccccccccccccchh
Confidence 9999999999987651 22333333321 112222111 1233458999999999999999987 46664 223
Q ss_pred cccCCcCCCCC----CCCCCCC-CCCCCcccccCCCccCCCCCCccc--ccCCCcccchhhhcccHHHHHHHHHhcCCcc
Q 004476 634 DVFMDEDEGPR----TTDHEMK-DEPGGWTEVKETGEEENPSKEDKE--EIVPDETIHELAVGKGLAGALSLLKDRGTLK 706 (751)
Q Consensus 634 Dv~m~e~~~~~----~~~ee~~-ee~ggWs~V~~de~~~~~d~e~~e--e~~~~~~~eEp~Vg~GLAAAL~LLk~KGlLk 706 (751)
+ +|++..... +.+++.. .++++|..|++++.....+....+ .....++..+|.|+.|||.+|.||.++|||.
T Consensus 481 e-v~df~~~E~~~~~~e~~~~~~~e~~~~~~vaedap~~~~d~~~~~~~~~~~~al~~e~dvk~~v~~~~~l~~~~G~~~ 559 (705)
T KOG2217|consen 481 E-VTDFHTTEESENNVETEEVELEEPGTWEGVAEDAPKEEDDVGAVESNDFSGLALDEEPDVKEGVATELDLALKKGKLQ 559 (705)
T ss_pred h-hccccccccccccCCcccccccccccccccCCCCccccccccchhcccccccccccchhhhhhhhHHHHHhhhccccc
Confidence 2 333322221 2233333 457789999988765433322111 1112345689999999999999999999999
Q ss_pred cccccCCCCcchhhhHHHHHHhhhhHHHHHHHHH
Q 004476 707 EGIDWGGRNMDKKRASLLALLMTLQMLIIDLRIF 740 (751)
Q Consensus 707 e~vq~~gR~~dkkks~~~~vy~~~~~~~~d~~~~ 740 (751)
.+..+..|...+++++..+.||..++..++.+..
T Consensus 560 ~~~~kl~~~~~~~kh~~~~~y~~edk~~~~kk~~ 593 (705)
T KOG2217|consen 560 NNSEKLRRDRRKKKHLGTKTYTIEDKHAADKKVG 593 (705)
T ss_pred chHHhhhccccchhhhcccccchhhhhhhhhhhc
Confidence 9989999999999999999999999888665543
No 2
>PF03343 SART-1: SART-1 family; InterPro: IPR005011 This family of proteins appear to contain a leucine zipper [] and may therefore be a family of transcription factors.; PDB: 3PLV_C 3PLU_D.
Probab=100.00 E-value=5.6e-65 Score=581.93 Aligned_cols=432 Identities=36% Similarity=0.528 Sum_probs=0.0
Q ss_pred cCCcccccCchhh--hhhHHHHHHHHHhhcC-----------CCCchHHHHHHHhhhHHHHhHHHHHHHHHHhhhHHHhh
Q 004476 228 QDNEDAHVSTSGL--GDRILKMKEERLKKNS-----------EGAPEILSWVNRSRKIEQIKNVEKKKALQLSKIFEEQD 294 (751)
Q Consensus 228 ~d~~~~~~~~~eL--~erI~~~kekR~~~~k-----------ddddD~~sWv~ksrk~e~~kk~Eke~A~krAk~leE~D 294 (751)
+.+........+| +++|..++++|.+..+ ++++||++||.++|+++.++. .+.+++++|.
T Consensus 47 ~~~~~~~~~~~~~~~~~ki~~~r~kr~~~~kl~~~k~L~e~~~d~~D~~~Wv~k~rk~~~~~~----~~~~~~~~~~--- 119 (613)
T PF03343_consen 47 ADEEEEKKKREELELKEKIKKAREKRERNKKLKGVKTLGEAEDDDDDADSWVKKSRKKEKKKK----KERKRAKALD--- 119 (613)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred ccchhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCCccccccccccccHHHHHHHhhhhHHHHH----HHHHHHHhhc---
Confidence 3455566677777 9999999999975532 367899999999999966333 3334444431
Q ss_pred hhhcCCCchhhhccCCcCCCCCCeeeccccccccCCcEEEeecCccccccCCCCCCcccccchhhhhhhhHHHHHHHHhc
Q 004476 295 NIVQGESEDEEAGQHSSHDLAGVKVLHGLDKVMEGGAVVLTLKDQQILADGDINEDVDMLENIEIGEQKRRDEAYKAAKK 374 (751)
Q Consensus 295 ~~~~v~~~~~~~~~Yt~~DL~GlkV~H~~~~f~eG~~~ILTLKD~~VLdd~d~~ee~D~LeNv~L~e~er~~~~l~~kKK 374 (751)
..............|++.||+||+|+|+++.|.+|++|||||||++||++++ ++|||+||+|+++++.+++|+++++
T Consensus 120 ~~~~~~~~~~~~~~y~~~dL~glkV~H~~~~f~eg~~vILTLKD~~VLdd~~---~~D~LeNv~l~e~ek~kknle~kkk 196 (613)
T PF03343_consen 120 DEEEEEKEKKKAKEYTSKDLAGLKVAHDLDEFEEGEEVILTLKDSSVLDDDD---EGDVLENVNLAEDEKRKKNLELKKK 196 (613)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred ccchhhhhhhhccccccccCCCCeeecchhhhccCCCeEEEeCCCCcCcCCC---CCCEEechhhHHHHHHHHHHHHhcc
Confidence 0000001112356799999999999999999999999999999999999863 2299999999999999999999888
Q ss_pred cCCCCCCCCCCCCCCCCcCCcccCCcCCC---CC---eeeCCCCCcChHHHHHHHHHHHHHhhhhccCccCccCCCcccC
Q 004476 375 KTGIYDDKFNDDPSSEKKILPQYDEPATD---EG---LTLDARGRFTGEAEKKLEELRRRIQGVQANNSTGDLNLSAKIT 448 (751)
Q Consensus 375 k~~~YDde~~dd~~~~k~IL~KYDEEieg---~~---F~L~~~G~~~~~~e~~~ee~r~kL~~~~~~~~lesL~~~~~~a 448 (751)
+++ ||+ |++.++..++||+|||++|+| .. |+|+..|.+....+..++.+..+|... ..++.+|.....++
T Consensus 197 ~~~-~d~-~e~~~~~~k~iL~kYDeeie~~~~~~~~~f~L~~~g~~~~~~~~~~~~~~~k~~~~--~~~l~~~~~~~~~~ 272 (613)
T PF03343_consen 197 KKG-YDP-DEDGNGKKKSILSKYDEEIEGEKKKSDNSFTLDEGGSVDDEKEKKEQEIKEKLKLS--SLSLDSLDSKEKIA 272 (613)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred Ccc-ccc-ccccccCCCCccccCcccccCcccccccceEecCCCcchHHHHHHHhhHHHHHhhc--cccccccCCccccc
Confidence 755 654 344567788999999999987 34 999999999887777888887776653 23455555567899
Q ss_pred CccccHHhhhhccCccccchhhhhhhccchhhHHHHhhhcCCCCCCCCCccccchhhhHHHHHHHHHHHhhHhhHHHHHH
Q 004476 449 SDYFTQEEMLQFKKPKKKKKSIRKKEKLDLDALEAEALSAGLGVEDLGSRKDGRRQAIREEQEKSEAEMKNKAYQSAYAK 528 (751)
Q Consensus 449 SDY~t~eEm~kFKKPKKKKKK~RkK~k~d~ddle~e~~~~~~~~~DlGSR~r~rr~~~~~e~e~~d~~~r~~~~~~a~~k 528 (751)
|||||++||++||||||||++.+++.. ..|++.+.+.+.+.+++++|||.+ .++.+. .++.
T Consensus 273 sDy~t~~Em~kfKK~KkKk~kk~~r~~-~~D~~~~~~~~~~~~~~~~~sr~~-----------~v~~~~------~~~~- 333 (613)
T PF03343_consen 273 SDYYTEEEMIKFKKPKKKKKKKKKRKK-KADDLELEPEEAASGSSDSGSRKM-----------EVDEEE------QRLE- 333 (613)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred ccccCccccccccccccccchhhhhhh-hhhccccccccccccccccccccc-----------cccccc------cccc-
Confidence 999999999999999998755544432 235565555556667788888863 111100 0000
Q ss_pred HHHHHHhhhhhccCCCCccccCCCCCCCChHHHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHhhcccccc-CcccccccC
Q 004476 529 AEEAIKSLRMEQTRPVKLEEENEEPIADDEDDLYKSLERARKLALKKQEASSGPEAIARLATSQTANEQS-TTNEESEEK 607 (751)
Q Consensus 529 A~e~s~~~r~~~~~~~~~~~~e~~~~~eDDeDLQasLaraRRla~KK~~~~~~Pe~IA~~~~~~~~~~~~-~~~~~~~~g 607 (751)
++ .........+..|++||++||++|+++|++++++....+.|+.||.+|......... ........+
T Consensus 334 ---~~--------~~~~~~~~~~~~~~eddddL~~~L~k~Rrl~~k~~~~~~~~e~Ia~~i~~~~~~~~~~~~~~~~~~~ 402 (613)
T PF03343_consen 334 ---AV--------PQKRKEEEDDDDFVEDDDDLQASLAKARRLKQKKKRKKMTPEEIAEQIKEERQEEEERAEEEENNSG 402 (613)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred ---cc--------cccccccccccccccccHHHHHHHHHHHHHHHhhhhccCCHHHHHHHHHhhhhhhhhhcccccccCC
Confidence 00 011112222355667899999999999999998333357889999887654443221 111345678
Q ss_pred ceEeechHHHhhcCCCCccc----cccccccccCCcCCCCCCC--CCCCCCCCCCcccccCCCccCCCCCCcccccCCCc
Q 004476 608 KVVITELQEFVWGLPVGEEV----QKQDRQDVFMDEDEGPRTT--DHEMKDEPGGWTEVKETGEEENPSKEDKEEIVPDE 681 (751)
Q Consensus 608 glVfdeTSEFvrtL~~~~~~----~R~e~eDv~m~e~~~~~~~--~ee~~ee~ggWs~V~~de~~~~~d~e~~ee~~~~~ 681 (751)
+||||+|+|||++|+.++.. ++.......+......... ........+.|..|..+...... ........+
T Consensus 403 ~iv~d~TsEF~r~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~---~~~~~~~~~ 479 (613)
T PF03343_consen 403 GIVFDETSEFCRSLGDNPTEEEAGNRDEEEEEESDPEEEEEDEEEEDEEEDEDEEMKEVDEDEEKEEE---EDEDEESEI 479 (613)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred ceEeccHHHHHHhhccccccccccccCCCccccccccccccccccccccccccccccccCCchhhhhh---hhccccccc
Confidence 99999999999999987632 2211111111111111111 11223345678777765433210 011112335
Q ss_pred ccchhhhcccHHHHHHHHHhcCCcc
Q 004476 682 TIHELAVGKGLAGALSLLKDRGTLK 706 (751)
Q Consensus 682 ~~eEp~Vg~GLAAAL~LLk~KGlLk 706 (751)
+.+||.||.||||||+||+++|||.
T Consensus 480 ~~~Ep~v~~GlaatL~lLk~kG~l~ 504 (613)
T PF03343_consen 480 LDEEPDVGSGLAATLKLLKQKGYLK 504 (613)
T ss_dssp -------------------------
T ss_pred cccCccccccHHHHHHHHHhCcccc
Confidence 5679999999999999999999999
No 3
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=94.54 E-value=0.015 Score=64.51 Aligned_cols=10 Identities=30% Similarity=0.345 Sum_probs=6.2
Q ss_pred CCCeeecccc
Q 004476 315 AGVKVLHGLD 324 (751)
Q Consensus 315 ~GlkV~H~~~ 324 (751)
.-++|.|+-.
T Consensus 455 ~Evk~e~~gn 464 (479)
T KOG4676|consen 455 EEVKIEHNGN 464 (479)
T ss_pred ccccccccCc
Confidence 4477777654
No 4
>KOG2217 consensus U4/U6.U5 snRNP associated protein [RNA processing and modification]
Probab=93.90 E-value=0.046 Score=64.26 Aligned_cols=168 Identities=20% Similarity=0.118 Sum_probs=103.3
Q ss_pred ChHHHHHHHHHHHHHHHHHhh-hcCCHHHHHHHHHh--hccccccC-cccccccCceEeechHHHhhcCCCCcccccccc
Q 004476 557 DEDDLYKSLERARKLALKKQE-ASSGPEAIARLATS--QTANEQST-TNEESEEKKVVITELQEFVWGLPVGEEVQKQDR 632 (751)
Q Consensus 557 DDeDLQasLaraRRla~KK~~-~~~~Pe~IA~~~~~--~~~~~~~~-~~~~~~~gglVfdeTSEFvrtL~~~~~~~R~e~ 632 (751)
+=+.++.+|.++|++..-... ...+|..|+..++. +...+.-+ ...++..+ ++|+++.-|+++++...-+..++.
T Consensus 422 ~~e~~~~~~e~~~~~~~~e~e~~~~~~~~i~~~~tte~~rtlg~i~t~g~egnrn-~d~~ev~df~~~E~~~~~~e~~~~ 500 (705)
T KOG2217|consen 422 DGEKVLKSLEKSRSMVVDEKESFDDTRGAIVLDATTEFCRTLGDITTYGLEGNRN-VDINEVTDFHTTEESENNVETEEV 500 (705)
T ss_pred cHHHHHHHHHHhhhcccccccCccCccceeeehhhhHHHHhccCccccccccccc-cchhhhccccccccccccCCcccc
Confidence 346899999999988775543 23345556654432 23322211 11223333 999999999999997653333332
Q ss_pred --ccccCCcCCCCCCCCCCCCCCCCCcccccCCCccCCCCCCcccccCCCcccchhhhcccHHHHHHHHHhcCCcccccc
Q 004476 633 --QDVFMDEDEGPRTTDHEMKDEPGGWTEVKETGEEENPSKEDKEEIVPDETIHELAVGKGLAGALSLLKDRGTLKEGID 710 (751)
Q Consensus 633 --eDv~m~e~~~~~~~~ee~~ee~ggWs~V~~de~~~~~d~e~~ee~~~~~~~eEp~Vg~GLAAAL~LLk~KGlLke~vq 710 (751)
+++.|-....+..+. .+.+.|...+++..+..-.+..+-...++..++....+|.++-++++|+++++-++....
T Consensus 501 ~~~e~~~~~~vaedap~---~~~d~~~~~~~~~~~~al~~e~dvk~~v~~~~~l~~~~G~~~~~~~kl~~~~~~~kh~~~ 577 (705)
T KOG2217|consen 501 ELEEPGTWEGVAEDAPK---EEDDVGAVESNDFSGLALDEEPDVKEGVATELDLALKKGKLQNNSEKLRRDRRKKKHLGT 577 (705)
T ss_pred cccccccccccCCCCcc---ccccccchhcccccccccccchhhhhhhhHHHHHhhhcccccchHHhhhccccchhhhcc
Confidence 245554444343332 233455566665544321111111233445556778889999999999999999999999
Q ss_pred cCCCCcchhh-hHHHHHHh
Q 004476 711 WGGRNMDKKR-ASLLALLM 728 (751)
Q Consensus 711 ~~gR~~dkkk-s~~~~vy~ 728 (751)
|+++..++.. ...++..+
T Consensus 578 ~~y~~edk~~~~kk~~r~D 596 (705)
T KOG2217|consen 578 KTYTIEDKHAADKKVGRRD 596 (705)
T ss_pred cccchhhhhhhhhhhcchh
Confidence 9999999887 56555544
No 5
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=89.77 E-value=0.19 Score=56.28 Aligned_cols=22 Identities=18% Similarity=0.314 Sum_probs=10.1
Q ss_pred HhhhhhhhhhhccCCCCccccc
Q 004476 185 VSRKAHEEDCARSNDNMPKLDN 206 (751)
Q Consensus 185 ~~~~~~~~~~~~~~~~~~~~~~ 206 (751)
++..++-.-+-++.+.-|..-.
T Consensus 349 s~srerrrRRSrSrsRspR~sk 370 (479)
T KOG4676|consen 349 SSSRERRRRRSRSRSRSPRTSK 370 (479)
T ss_pred cchhhhhhhhccccccCCCCCC
Confidence 4444444444555444444333
No 6
>KOG4246 consensus Predicted DNA-binding protein, contains SAP domain [General function prediction only]
Probab=68.47 E-value=1.7 Score=52.83 Aligned_cols=19 Identities=11% Similarity=0.029 Sum_probs=15.5
Q ss_pred hhcccHHHHHHHHHhcCCc
Q 004476 687 AVGKGLAGALSLLKDRGTL 705 (751)
Q Consensus 687 ~Vg~GLAAAL~LLk~KGlL 705 (751)
-+.+|+-.+|.+|..+---
T Consensus 1090 ~~~s~~~q~lq~~~e~~dr 1108 (1194)
T KOG4246|consen 1090 EKTSGTVQDLQTEAETDDR 1108 (1194)
T ss_pred hhhhHHHHHHHHHhhhcch
Confidence 4689999999999887543
No 7
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=59.29 E-value=0.78 Score=52.13 Aligned_cols=8 Identities=25% Similarity=0.364 Sum_probs=3.1
Q ss_pred HHHhcCCc
Q 004476 698 LLKDRGTL 705 (751)
Q Consensus 698 LLk~KGlL 705 (751)
+|..=|.|
T Consensus 439 ~f~~~G~v 446 (509)
T TIGR01642 439 EFSKYGPL 446 (509)
T ss_pred HHHhcCCe
Confidence 33333433
No 8
>KOG4246 consensus Predicted DNA-binding protein, contains SAP domain [General function prediction only]
Probab=55.16 E-value=4.8 Score=49.11 Aligned_cols=11 Identities=36% Similarity=0.833 Sum_probs=5.3
Q ss_pred CCCCCCccccc
Q 004476 4 FGPDESPVREY 14 (751)
Q Consensus 4 ~~~~~~~~~~~ 14 (751)
+||.-.|-|+|
T Consensus 257 ~g~~lp~~r~~ 267 (1194)
T KOG4246|consen 257 YGVSLPPGRDY 267 (1194)
T ss_pred cCCCCCCCCCc
Confidence 34444444544
No 9
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=50.44 E-value=39 Score=41.61 Aligned_cols=22 Identities=27% Similarity=0.578 Sum_probs=10.3
Q ss_pred hhhhhhhhhHHHHhhhHHHHhH
Q 004476 138 RGREKHKDREKERESEKDRERD 159 (751)
Q Consensus 138 ~~r~~~~~r~~~r~~~~~~~~~ 159 (751)
.++.=.|+|+.+|+||-+|.|+
T Consensus 373 lekqLerQReiE~qrEEerkke 394 (1118)
T KOG1029|consen 373 LEKQLERQREIERQREEERKKE 394 (1118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3333345555555554444444
No 10
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=36.08 E-value=1.3e+02 Score=37.33 Aligned_cols=9 Identities=33% Similarity=0.549 Sum_probs=3.7
Q ss_pred hhhhHHHHH
Q 004476 240 LGDRILKMK 248 (751)
Q Consensus 240 L~erI~~~k 248 (751)
|..+|....
T Consensus 491 lqarikE~q 499 (1118)
T KOG1029|consen 491 LQARIKELQ 499 (1118)
T ss_pred HHHHHHHHH
Confidence 444444433
No 11
>KOG0670 consensus U4/U6-associated splicing factor PRP4 [RNA processing and modification]
Probab=35.14 E-value=26 Score=41.73 Aligned_cols=7 Identities=14% Similarity=0.344 Sum_probs=4.0
Q ss_pred hHHHhhc
Q 004476 614 LQEFVWG 620 (751)
Q Consensus 614 TSEFvrt 620 (751)
+|-|.|.
T Consensus 597 VSRFYRa 603 (752)
T KOG0670|consen 597 VSRFYRA 603 (752)
T ss_pred HHHhccC
Confidence 4666665
No 12
>KOG0670 consensus U4/U6-associated splicing factor PRP4 [RNA processing and modification]
Probab=28.78 E-value=14 Score=43.90 Aligned_cols=10 Identities=20% Similarity=-0.090 Sum_probs=4.0
Q ss_pred EEEeecCccc
Q 004476 332 VVLTLKDQQI 341 (751)
Q Consensus 332 ~ILTLKD~~V 341 (751)
.|+|-.+.+.
T Consensus 327 q~~~~~~~~~ 336 (752)
T KOG0670|consen 327 QVKTTLPIEA 336 (752)
T ss_pred hhhhcccccC
Confidence 4444433333
No 13
>PF09701 Cas_Cmr5: CRISPR-associated protein (Cas_Cmr5); InterPro: IPR010160 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a family of Cas proteins as represented by TM1791.1 from Thermotoga maritima. This family of Cas proteins are found in both archaeal and bacterial species.; PDB: 2OEB_A 2ZOP_A.
Probab=23.32 E-value=43 Score=31.78 Aligned_cols=20 Identities=25% Similarity=0.461 Sum_probs=16.3
Q ss_pred hhcccHHHHHHHHHhcCCcc
Q 004476 687 AVGKGLAGALSLLKDRGTLK 706 (751)
Q Consensus 687 ~Vg~GLAAAL~LLk~KGlLk 706 (751)
++..||+.||++|..||-=.
T Consensus 39 I~~nGL~qtlAF~~sK~~~~ 58 (122)
T PF09701_consen 39 ILQNGLGQTLAFLLSKGKDE 58 (122)
T ss_dssp HHHH-HHHHHHHHHCTSSCH
T ss_pred HHHcCHHHHHHHHHhccccc
Confidence 56899999999999998644
No 14
>PTZ00266 NIMA-related protein kinase; Provisional
Probab=22.64 E-value=2.5e+02 Score=36.22 Aligned_cols=21 Identities=38% Similarity=0.631 Sum_probs=13.9
Q ss_pred ChHHHHHHHHHHHHHHHHHhh
Q 004476 557 DEDDLYKSLERARKLALKKQE 577 (751)
Q Consensus 557 DDeDLQasLaraRRla~KK~~ 577 (751)
++.--++-|++-|---|-|++
T Consensus 897 ~~~~~~~~~~~~~~~~~~~~~ 917 (1021)
T PTZ00266 897 EVDRSYKHLEKDREYLLEKRK 917 (1021)
T ss_pred ccchhhhhhhhhHHHHHHHHH
Confidence 344567788888876666654
Done!